Arrdc5 (arrestin domain containing 5) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Arrdc5 (arrestin domain containing 5) Rattus norvegicus
Analyze
Symbol: Arrdc5
Name: arrestin domain containing 5
RGD ID: 1591748
Description: Predicted to be involved in protein transport. Predicted to be active in endosome and plasma membrane. Orthologous to human ARRDC5 (arrestin domain containing 5); INTERACTS WITH bisphenol A; lead nitrate; aflatoxin B1 (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: arrestin domain-containing protein 5; LOC680452; similar to T12D8.4
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr891,213,794 - 1,221,188 (-)NCBIGRCr8
mRatBN7.291,126,644 - 1,132,736 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl91,126,644 - 1,132,816 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx91,572,320 - 1,578,413 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.096,920,310 - 6,926,401 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.095,877,364 - 5,883,457 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0910,760,113 - 10,766,199 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl910,760,113 - 10,766,199 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.099,751,885 - 9,757,867 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera97,377,403 - 7,383,399 (+)NCBICelera
Cytogenetic Map9q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Arrdc5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr891,213,794 - 1,221,188 (-)NCBIGRCr8
mRatBN7.291,126,644 - 1,132,736 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl91,126,644 - 1,132,816 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx91,572,320 - 1,578,413 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.096,920,310 - 6,926,401 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.095,877,364 - 5,883,457 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0910,760,113 - 10,766,199 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl910,760,113 - 10,766,199 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.099,751,885 - 9,757,867 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera97,377,403 - 7,383,399 (+)NCBICelera
Cytogenetic Map9q11NCBI
ARRDC5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38194,890,437 - 4,916,820 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl194,890,437 - 4,902,896 (-)EnsemblGRCh38hg38GRCh38
GRCh37194,890,449 - 4,902,908 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36194,841,449 - 4,853,879 (-)NCBINCBI36Build 36hg18NCBI36
Celera194,827,460 - 4,839,887 (-)NCBICelera
Cytogenetic Map19p13.3NCBI
HuRef194,652,373 - 4,664,861 (-)NCBIHuRef
CHM1_1194,890,053 - 4,902,743 (-)NCBICHM1_1
T2T-CHM13v2.0194,875,655 - 4,902,266 (-)NCBIT2T-CHM13v2.0
Arrdc5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391756,601,111 - 56,607,262 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1756,601,111 - 56,607,286 (-)EnsemblGRCm39 Ensembl
GRCm381756,294,111 - 56,300,286 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1756,294,111 - 56,300,286 (-)EnsemblGRCm38mm10GRCm38
MGSCv371756,433,534 - 56,439,709 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361755,927,820 - 55,933,995 (-)NCBIMGSCv36mm8
Celera1760,647,948 - 60,654,123 (-)NCBICelera
Cytogenetic Map17DNCBI
cM Map1729.26NCBI
Arrdc5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554954,161,222 - 4,171,830 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554954,161,144 - 4,166,968 (+)NCBIChiLan1.0ChiLan1.0
ARRDC5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2209,279,244 - 9,302,270 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1198,508,640 - 8,531,582 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0193,908,149 - 3,920,239 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
ARRDC5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12054,894,127 - 54,905,935 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2054,893,935 - 54,905,934 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2054,618,503 - 54,630,313 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02055,548,639 - 55,560,436 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2055,548,441 - 55,560,435 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12054,609,915 - 54,621,718 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02055,090,635 - 55,102,431 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02055,288,509 - 55,300,323 (+)NCBIUU_Cfam_GSD_1.0
Arrdc5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118214,975,581 - 214,982,249 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365882,852,574 - 2,859,142 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365882,851,711 - 2,859,142 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ARRDC5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl273,935,721 - 73,950,575 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1273,935,538 - 73,950,586 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
ARRDC5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.164,578,953 - 4,584,429 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660813,550,425 - 3,563,766 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Arrdc5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248284,934,137 - 4,939,114 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248284,934,096 - 4,939,147 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Arrdc5
11 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:88
Count of miRNA genes:81
Interacting mature miRNAs:83
Transcripts:ENSRNOT00000073054
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70226Eae4Experimental allergic encephalomyelitis QTL 4nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)9125661317Rat
10054141Gmadr4Adrenal mass QTL 42.450.0074adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)9114209783Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)9137999212Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9137999212Rat
1331757Cdexp1CD45RC expression in CD8 T cells QTL 14.3CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)9102453767509080Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9143718459Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)9137999212Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9143718459Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9140594091Rat


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 39
Low 23 23 6 19 26 39 9 9 15
Below cutoff 11 22 67 13 36 13 17 19 22 19 25 40 9

Sequence


Ensembl Acc Id: ENSRNOT00000073054   ⟹   ENSRNOP00000064476
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl91,126,644 - 1,132,816 (-)Ensembl
Rnor_6.0 Ensembl910,760,113 - 10,766,199 (+)Ensembl
RefSeq Acc Id: NM_001109408   ⟹   NP_001102878
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr891,213,799 - 1,219,890 (-)NCBI
mRatBN7.291,126,644 - 1,132,736 (-)NCBI
Rnor_6.0910,760,113 - 10,766,199 (+)NCBI
Rnor_5.099,751,885 - 9,757,867 (+)NCBI
Celera97,377,403 - 7,383,399 (+)RGD
Sequence:
RefSeq Acc Id: XM_063267722   ⟹   XP_063123792
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr891,213,794 - 1,221,185 (-)NCBI
RefSeq Acc Id: XM_063267723   ⟹   XP_063123793
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr891,213,794 - 1,221,188 (-)NCBI
RefSeq Acc Id: XM_063267724   ⟹   XP_063123794
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr891,213,794 - 1,219,980 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001102878 (Get FASTA)   NCBI Sequence Viewer  
  XP_063123792 (Get FASTA)   NCBI Sequence Viewer  
  XP_063123793 (Get FASTA)   NCBI Sequence Viewer  
  XP_063123794 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL83646 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000064476.1
RefSeq Acc Id: NP_001102878   ⟸   NM_001109408
- UniProtKB: M0R521 (UniProtKB/TrEMBL),   A6KQY8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000064476   ⟸   ENSRNOT00000073054
RefSeq Acc Id: XP_063123793   ⟸   XM_063267723
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063123792   ⟸   XM_063267722
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063123794   ⟸   XM_063267724
- Peptide Label: isoform X2
Protein Domains
Arrestin C-terminal-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R521-F1-model_v2 AlphaFold M0R521 1-325 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13696462
Promoter ID:EPDNEW_R6987
Type:initiation region
Name:Arrdc5_1
Description:arrestin domain containing 5
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0910,760,115 - 10,760,175EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1591748 AgrOrtholog
BioCyc Gene G2FUF-28536 BioCyc
Ensembl Genes ENSRNOG00000047223 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000073054.2 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.640 UniProtKB/TrEMBL
InterPro Arrestin-like_N UniProtKB/TrEMBL
  Arrestin_C UniProtKB/TrEMBL
  Arrestin_C-like UniProtKB/TrEMBL
  Arrestin_domain-protein UniProtKB/TrEMBL
  Ig_E-set UniProtKB/TrEMBL
KEGG Report rno:680452 UniProtKB/TrEMBL
NCBI Gene 680452 ENTREZGENE
PANTHER ARRESTIN DOMAIN CONTAINING PROTEIN UniProtKB/TrEMBL
  ARRESTIN DOMAIN-CONTAINING PROTEIN 5 UniProtKB/TrEMBL
Pfam Arrestin_C UniProtKB/TrEMBL
  Arrestin_N UniProtKB/TrEMBL
PhenoGen Arrdc5 PhenoGen
RatGTEx ENSRNOG00000047223 RatGTEx
SMART Arrestin_C UniProtKB/TrEMBL
Superfamily-SCOP Ig_E-set UniProtKB/TrEMBL
UniProt A6KQY8 ENTREZGENE, UniProtKB/TrEMBL
  M0R521 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-07-08 Arrdc5  arrestin domain containing 5  LOC682107  similar to T12D8.4  Data merged from RGD:1586978 1643240 APPROVED
2008-03-05 Arrdc5  arrestin domain containing 5  LOC680452  similar to T12D8.4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC680452  similar to T12D8.4      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC682107  similar to T12D8.4      Symbol and Name status set to provisional 70820 PROVISIONAL